If four 16 team super conferences come to pass it will probably shake out like this-
Mizzou would be attractive geographically and TVgraphically to Pac 16, SEC, Big 10. Mizzou would prefer Big 10 but would settle for the other 2. OK, Okie State, KU go to Pac 16. Anyone who thinks KU and K State are tied together is nuts since together they bring no additional revenue since they are both in a small state. (Same reason why Big Ten will never consider ISU)
BYU has no choice but to remain Indy as long as the social politics of the liberal Pac 16 schools keep them out. Due to greed, arrogance, stubbornness and the desire to have their own TV network Notre Dame and Texas remain and go Indy.
The Big Ten and SEC cherry pick the current ACC and Big East to get to 16. The leftover 16 form the East Coast Conference, which would easily be the weakest of the 4.
This leaves ISU, Baylor and K State and Texas Tech in limbo. The East Coast conference won't want any of them due to geography and no TV's. A team like East Carolina would more likely to get included due to geography if the East needed an extra team.
Perhaps the remnants could poach a few of the stronger MAC, CUSA, MW, and Sunbelt teams and form a new conference. It wouldn't get a very lucrative TV contract but ISU could be competitive in it. If another BCS game is added an auto bid may be thrown as a bone by the super 64. Also the Indy's may need to fill their October and November schedules if the super 64 teams are playing 9 conference games. Might be able to get home and home with BYU or a 2 for 1 with Texas and Notre Dame. Each school and the conference as a whole would have to think outside the box for marketing and promotion. AS long as there are 32 bowls there could be some opportunities get some good destinations contracted.
ISU would be vastly better off all around in a Super 16 conference, but in the likely event it doesn't happen there may be other options for the teams left out than just joining the current MAC, CUSA, MW, or Sunbelt.